Beyond Mfold: recent advances in RNA bioinformatics

Journal of Biotechnology
Jens ReederRobert Giegerich

Abstract

Computational analysis of RNA secondary structure is a classical field of biosequence analysis, which has recently gained momentum due to the manyfold regulatory functions of RNA that have become apparent. We present five recent computational approaches that address the problems of synoptic folding space analysis, pseudoknot prediction, structure alignment, comparative structure prediction, and miRNA target prediction. All these programs are in current use and are available via the Bielefeld Bioinformatics Server at .

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Citations

Jul 4, 2012·Journal of Biosciences·Nirpendra SinghVibha Tandon
Jul 9, 2013·Proceedings of the National Academy of Sciences of the United States of America·Shlomi DvirEran Segal
Jul 6, 2007·Briefings in Bioinformatics·Alain Laederach
Jul 26, 2012·Bioinformatics·Ronny LorenzStephan H Bernhart
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May 10, 2007·Nucleic Acids Research·Yun-Sheng ChungChin Lung Lu
Apr 19, 2008·Nucleic Acids Research·Andreas WilmCédric Notredame
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Software Mentioned

RNAshapes
Vienna RNA Package
RNAfold
Vienna RNA
DNYALIGN
WebService
pknotsRG
RNAforester Bioinformatics Server
RNAforester
BiBiServ

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